recJ:Gene: Difference between revisions

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Fixing Blattner deletion strains in alleles table.
Adding section & Genetic interactions table to Gene pages.
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|{{Sub}}[[#Alleles and Phenotypes |Alleles and Phenotypes]]
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|{{Sub}}[[#Genetic Interactions | Genetic Interactions]]
|{{Sub}}[[#Genetic Resources  |Genetic Resources]]
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===Notes===
===Notes===


==Genetic Interactions==
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===Notes===


==Genetic Resources==
==Genetic Resources==

Revision as of 16:58, 24 June 2011

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Nomenclature Location(s) and DNA Sequence Sequence Features Alleles and Phenotypes Genetic Interactions Genetic Resources Accessions Links References Suggestions

Nomenclature

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See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.

Standard name

recJ

Mnemonic

Recombination

Synonyms

ECK2887, b2892, JW2860[1]

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Notes

Location(s) and DNA Sequence

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See Help:Gene_location for help entering information in the Gene Location and DNA sequence table.

Strain Map location Genome coordinates Genome browsers Sequence links

MG1655

65.4 minutes 

MG1655: 3036128..3034395
<gbrowseImage> name=NC_000913:3034395..3036128 source=ecoli preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 2923859..2922126
<gbrowseImage> name=NC_012967:2922126..2923859 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 2921543..2923276
<gbrowseImage> name=NC_012759:2921543..2923276 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 3036762..3035029
<gbrowseImage> name=AC_000091:3035029..3036762 source=ecoli_W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 3129998..3128265
<gbrowseImage> name=NC_010473:3128265..3129998 source=ecoli_DH10B preset=GeneLocation </gbrowseImage>

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Notes

Sequence Features

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See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.

Feature Type Strain Genomic Location Evidence Reference Notes
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Notes

Alleles and Phenotypes

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See Help:Gene_alleles for how to enter or edit alleles and phenotypes in EcoliWiki.

Allele Nt change(s) AA change(s) Phenotype: Type Phenotype: Description Reference Availability Comments

ΔrecJ (Keio:JW2860)

deletion

deletion

PMID:16738554[2]

Shigen
CGSC10217[3]

recJ::Tn5KAN-I-SceI (FB20963)

Insertion at nt 1026 in Minus orientation

PMID:15262929[4]

E. coli Genome Project:FB20963

contains pKD46

recJ::Tn5KAN-I-SceI (FB20964)

Insertion at nt 1026 in Minus orientation

PMID:15262929[4]

E. coli Genome Project:FB20964

does not contain pKD46

recJ284::Tn10

Insertion of Tn10 (Tetracycline-resistance) at nucleotide 434 relative to GTG start codon

truncation

null phenotype, recombination deficient and UV-sensitive in recBC sbcA and recBC sbcBC backgrounds. Highly synergistic for UV-sensitivity, recombination deficiency and partial inviability with recBC.

[5]

CGSC

recJ77

G to A nucleotide 281

G to D amino acid 78

similar to recJ284, null

[5] [6]

recJ153 recJ154

GTG to GTA at start codon

None

Reduces expression of recJ gene, can be suppressed by mutations in initiation factor IF3 for translation

[7] [5] [8]

recJ153

CGSC:7801

recJ284::Tn10

CGSC:72003

ΔrecJ743::kan

PMID:16738554[2]

CGSC:102628


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Notes

Genetic Interactions

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Interactor Interaction Allele Score(s) Reference(s) Accessions Notes
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Notes

Genetic Resources

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See Help:Gene_resources for help entering information into the Genetic Resources table.

Resource Resource Type Source Notes/Reference

JW2860

Plasmid clone

Shigen

PMID:16769691[9]

Status:Clone OK

Primer 1:GCCAAACAACAGATACAACTTCG

Primer 2:CCAATTGGCCAGATATTGTCGAT

recD1901::Tn10

Linked marker

CAG12135 = CGSC7429[3]

est. P1 cotransduction: % [10]

speA210::Tn10

Linked marker

CAG12168 = CGSC7431[3]

est. P1 cotransduction: 9% [10]
Synonyms:zgd-210::Tn10, zgf-210::Tn10

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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

EcoCyc (EcoliWiki Page)

EcoCyc:EG10830

EchoBASE (EcoliWiki Page)

EchoBASE:EB0823

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b2892

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C3472

EcoGene (EcoliWiki Page)

EcoGene:EG10830

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:RECJ

CGSC (EcoliWiki Page)

CGSC:17965

ASAP (EcoliWikiPage)

ASAP:ABE-0009492


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Notes

Links

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References

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See Help:References for how to manage references in EcoliWiki.

  1. ↑ Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.0 2.1 Baba, T et al. (2006) Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection. Mol. Syst. Biol. 2 2006.0008 PubMed
  3. ↑ 3.0 3.1 3.2 CGSC: The Coli Genetics Stock Center
  4. ↑ 4.0 4.1 Kang, Y et al. (2004) Systematic mutagenesis of the Escherichia coli genome. J. Bacteriol. 186 4921-30 PubMed
  5. ↑ 5.0 5.1 5.2 Lovett, ST & Clark, AJ (1984) Genetic analysis of the recJ gene of Escherichia coli K-12. J. Bacteriol. 157 190-6 PubMed
  6. ↑ Gillen, JR et al. (1981) Genetic analysis of the RecE pathway of genetic recombination in Escherichia coli K-12. J. Bacteriol. 145 521-32 PubMed
  7. ↑ Horii, Z & Clark, AJ (1973) Genetic analysis of the recF pathway to genetic recombination in Escherichia coli K12: isolation and characterization of mutants. J. Mol. Biol. 80 327-44 PubMed
  8. ↑ Haggerty, TJ & Lovett, ST (1997) IF3-mediated suppression of a GUA initiation codon mutation in the recJ gene of Escherichia coli. J. Bacteriol. 179 6705-13 PubMed
  9. ↑ Kitagawa, M et al. (2005) Complete set of ORF clones of Escherichia coli ASKA library (a complete set of E. coli K-12 ORF archive): unique resources for biological research. DNA Res. 12 291-9 PubMed
  10. ↑ 10.0 10.1 The Tn10 insertion sites determined by Nichols et al. 1998 (PMID:9829956) were reannotated by alignment with E. coli K-12 genome sequence (GenBank accession NC_000913). P1 contransduction frequencies were calculated using the formula of Wu (PMID:5338813).

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